Predicted mutation
evidence	seq id	position	mutation	annotation	gene	description
RA	NC_000913	4,312,151	G→C	Q281E (CAA→GAA)	alsR ←	DNA‑binding transcriptional repressor AlsR

Read alignment evidence...
	seq id	position		ref	new	freq	score (cons/poly)	reads	annotation	genes	product
*	NC_000913	4,312,151	0	G	C	100.0%	114.2 / NA	32	Q281E (CAA→GAA)	alsR	DNA‑binding transcriptional repressor AlsR
Reads supporting (aligned to +/- strand):  ref base G (0/0);  new base C (18/14);  total (18/14)

CAATGCCTTTTTTCATATCTACCCAAAATGGGTTGGAGAGGGTTTTCAATACGACAGCATATTCGGCGGCAGCAAAAGCGCTGGTTGACAACATTAAGCCCACGAGTGTGCCGCTGAAATATTTCAGATATTTATTCATAATAATGTTCTCACGGTAAGGGGACAGGTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTGCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAAGTTAGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATAATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACAAATAATCTTTGCCCCGTTCTTTTTTGCCAGTTCTACGGCCGCTTTTACATCACTGGTTCGCC  >  NC_000913/4311904‑4312396                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                      gtctcgctccagttaatcaaatcacgcatacgcgctctcgactacagtatgcatcttttatgccacattttatgtggggtcattccctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCata                                                                                                                                                                                                                                                   <  1:286838‑M2/98‑1 (MQ=255)  tctcgctccagttaatcaaatcacgcatacgcgctctcgactacagtatgcatcttttatgccacattttatgtggggtcattccctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGACATCAACAATTGCGCCGGTTTTTTCCatat                                                                                                                                                                                                                                                  >  2:455156‑M2/153‑251 (MQ=255)               aatcaaatcacgcatacgcgctctcgactacagtatgcatcttttatgccacattttatgtggggtcattccctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTg                                                                                                                                                                                                                                     <  1:23971‑M2/112‑1 (MQ=255)                   aaatcacgcatacgcgctctcgactacagtatgcatcttttatgccacattttatgtggggtcattccctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTc                                                                                                                                                                                                                                  >  2:414448‑M2/136‑250 (MQ=255)                     atcacgcatacgcgctctcgactacagtatgcatcttttatgccacagtttatgtgggttcattccctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTGGTCCATATTAATATTAGCGTGTTCAAt                                                                                                                                                                                                                               <  2:438438‑M2/118‑1 (MQ=255)                         cgcatacgcgctctcgactacagtatgcatcttttatgccacattttatgtggggtcattacctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATTGCGGCATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGAGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTg                                                                                                                                                                                                                           >  2:457116‑M2/130‑251 (MQ=255)                           catacgcgctctcgactacagtatgcatcttttatgccacattttatgtggggtcattccctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTg                                                                                                                                                                                                                           >  1:368730‑M2/128‑249 (MQ=255)                                                 atgcatcttttatgccacattttatgtggggtcattccctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACaaaaaa                                                                                                                                                                                                    >  1:52136‑M2/106‑250 (MQ=255)                                                                      ttatgtggggtcattccctggttttacgggcactatttaatcaaaactctgacgaaaaacaggctgtcgtcagttttggcgtgaGGTAAGGGGAC‑CGTAACTCCGCGATGGCGGAATTGCCTTTTTCTTATTTCAGCGCGCCTGGTTAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGGTGTGCTGGGCGACAGAGACAAAAAAAGCGTCCagcaaggttggatg                                                                                                                                                                               <  2:132331‑M2/166‑6 (MQ=255)                                                                                    tccctgatattacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCg                                                                                                                                                                 >  1:128771‑M2/71‑250 (MQ=255)                                                                                            attacgggctctatttattcaaacctctcacgaaaaacaggctgtcgccagttttgacgtgaGGTAAGGGGACA‑GAAACTCAGCGATGGCGGAATTACCTTTTTATTATTTCAGCGCGCCTGGAGCGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGAATTAc                                                                                                                                                        >  2:315018‑M2/63‑251 (MQ=255)                                                                                            attacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGtt                                                                                                                                                                                                                            >  1:164992‑M2/63‑183 (MQ=255)                                                                                            attacgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGtt                                                                                                                                                                                                                            <  2:164992‑M2/121‑1 (MQ=255)                                                                                               acgggcactatttattcaaaactctgacgaaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGa                                                                                                                                                      <  1:455156‑M2/191‑1 (MQ=255)                                                                                                          ttattcaaaactctgacgaaaaacaggatgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGc                                                                                                                                          >  1:180308‑M2/49‑251 (MQ=255)                                                                                                                        gacgaaaaacaggctgtcgtcagttgtgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCGTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCt                                                                                                                              <  1:452043‑M2/215‑1 (MQ=255)                                                                                                                            aaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGttt                                                                                                                                      <  2:440610‑M2/207‑1 (MQ=255)                                                                                                                            aaaaacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGttt                                                                                                                                      >  1:440610‑M2/31‑237 (MQ=255)                                                                                                                               aacaggctgtcgtcagttttgacgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCa                                                                                                                      >  2:361947‑M2/28‑250 (MQ=255)                                                                                                                                             agttttgacgagcGGTAAGGGGCCA‑GTCACTCCGCGATGGCGGAATTACATTTTTCTTATTTCCGCGAGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGc                                                                                                       >  2:478532‑M2/14‑251 (MQ=255)                                                                                                                                                    acgtgaGGTAAGGGGACA‑GTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTc                                                                                                <  1:189860‑M2/245‑1 (MQ=255)                                                                                                                                                         cGGTACGGGGACAG‑TAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTATCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGCGAGCAAATAATATGATCGGCCAGTTTCGCTAt                                                                                           >  2:16077/1‑251 (MQ=255)                                                                                                                                                             aaGGGGACAG‑TAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGAGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTACTAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTCGCTATCGGt                                                                                       >  1:513696/1‑251 (MQ=255)                                                                                                                                                                                     gCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGGGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAAGAATATGATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACa                                                                <  1:315018/251‑1 (MQ=255)                                                                                                                                                                                      gggAATTCCCTTGTTCTTATTTCAGCGCGCCTGGTGAGAAGAAAACAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATCCTTGCCAAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAAGATGATCGGCCAGTTTTGCTATCGGTGAATCGTAGCTACTGGTTATACaa                                                               <  2:476573/250‑1 (MQ=255)                                                                                                                                                                                          aTTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACAaata                                                            >  2:397017/1‑250 (MQ=255)                                                                                                                                                                                                                                   caacaaTTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACAAATAATCTTTGCCCCGTTCTTTGTTGCCAGTTCGACGGCCGCttt                   <  2:52136/250‑1 (MQ=255)                                                                                                                                                                                                                                      caaTTGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACAAATAATCTTTGCCCCGTTCTTTTTTGCCAGTTCTACGGCCGCTTTTACa               <  1:361947/251‑1 (MQ=255)                                                                                                                                                                                                                                          tGCGCCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACAAATAATCTTTGCCCCGTTCTTTTTTGCCAGTTCTACGGCCGCTTTTACATCa            <  1:425226/250‑1 (MQ=255)                                                                                                                                                                                                                                           gcgcCGGTTTTTTCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAACAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACAACTAATCTTTGCCCCGTTCTTTTTTGCCAGTTCTACGGCCGCTTTTACATCACt          >  2:424238/1‑251 (MQ=255)                                                                                                                                                                                                                                                ggTTTTTTCCATCTTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACAAATAATCTTTGCCCCGTTCTTTTTTGCCAGTTCTACGGCCGCTTTTACATCACTGGTTc     >  2:233775/1‑251 (MQ=255)                                                                                                                                                                                                                                                   tttttCCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAGGTTGGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATGATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGGTATACAAATAATATTTGCCCCGTTCTTTTTTGCCGGTTCTACGGCCGCTTTTACATCACTGGTTCGcc  >  2:439931/1‑251 (MQ=255)                                                                                                                                                                                                                                                        |                                                                                                                                                                                                                                                      CAATGCCTTTTTTCATATCTACCCAAAATGGGTTGGAGAGGGTTTTCAATACGACAGCATATTCGGCGGCAGCAAAAGCGCTGGTTGACAACATTAAGCCCACGAGTGTGCCGCTGAAATATTTCAGATATTTATTCATAATAATGTTCTCACGGTAAGGGGACAGGTAACTCCGCGATGGCGGAATTACCTTTTTCTTATTTCAGCGCGCCTGGTGAGAAGAAATCAACAATTGCGCCGGTTTTTTGCATATTAATATTAGCTTGTTCAATGTTGAGCTGGGCGACAGAGACAAAAAAAGCGTCCAGCAAAGTTAGTTGTAATATTCTTGCCGAGGCATTACGACCTAATAACGGCGTTTCCGGGGCTGGTGAGCAAATAATATAATCGGCCAGTTTCGCTATCGGTGAATGGTAGCTATGGGTTATACAAATAATCTTTGCCCCGTTCTTTTTTGCCAGTTCTACGGCCGCTTTTACATCACTGGTTCGCC  >  NC_000913/4311904‑4312396

Alignment Legend
Aligned base mismatch/match (shaded by quality score): ATCG/ATCG < 3 ≤ ATCG/ATCG < 14 ≤ ATCG/ATCG < 16 ≤ ATCG/ATCG < 33 ≤ ATCG/ATCG < 39 ≤ ATCG/ATCG
Unaligned base: atcg    Masked matching base: atcg    Alignment gap: ‑    Deleted base: ‑